was there any change to the biomart web service recently? Today I stumbled over the following problem when I wanted to list all available marts:
> library(biomaRt) > listMarts() Space required after the Public Identifier SystemLiteral " or ' expected SYSTEM or PUBLIC, the URI is missing Opening and ending tag mismatch: hr line 7 and body Opening and ending tag mismatch: body line 4 and html Premature end of data in tag html line 2 Error: 1: Space required after the Public Identifier 2: SystemLiteral " or ' expected 3: SYSTEM or PUBLIC, the URI is missing 4: Opening and ending tag mismatch: hr line 7 and body 5: Opening and ending tag mismatch: body line 4 and html 6: Premature end of data in tag html line 2 >
I guess something had changed at the biomart web service.
> sessionInfo() R version 3.2.2 (2015-08-14) Platform: x86_64-apple-darwin15.0.0/x86_64 (64-bit) Running under: OS X 10.11.2 (El Capitan) locale:  en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8 attached base packages:  stats graphics grDevices utils datasets methods base other attached packages:  biomaRt_2.26.0 loaded via a namespace (and not attached):  IRanges_2.4.1 parallel_3.2.2 DBI_0.3.1  RCurl_1.95-4.7 Biobase_2.30.0 AnnotationDbi_1.32.0  RSQLite_1.0.0 S4Vectors_0.8.1 BiocGenerics_0.16.1  stats4_3.2.2 bitops_1.0-6 XML_3.98-1.3